1oe1: Difference between revisions

Latest revision as of 00:20, 21 November 2024

Atomic Resolution Structure of the Wildtype Native Nitrite Reductase from Alcaligenes xylosoxidans

Structural highlights

1oe1 is a 1 chain structure with sequence from Achromobacter xylosoxidans. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 1.04Å
Ligands:	CU, PCA, PG4
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

O68601_ALCXX

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

Publication Abstract from PubMed

We provide the first atomic resolution (<1.20 A) structure of a copper protein, nitrite reductase, and of a mutant of the catalytically important Asp92 residue (D92E). The atomic resolution where carbon-carbon bonds of the peptide become clearly resolved, remains a key goal of structural analysis. Despite much effort and technological progress, still very few structures are known at such resolution. For example, in the Protein Data Bank (PDB) there are some 200 structures of copper proteins but the highest resolution structure is that of amicyanin, a small (12 kDa) protein, which has been resolved to 1.30 A. Here, we present the structures of wild-type copper nitrite reductase (wtNiR) from Alcaligenes xylosoxidans (36.5 kDa monomer), the "half-apo" recombinant native protein and the D92E mutant at 1.04, 1.15 and 1.12A resolutions, respectively. These structures provide the basis from which to build a detailed mechanism of this important enzyme.

Atomic resolution structures of native copper nitrite reductase from Alcaligenes xylosoxidans and the active site mutant Asp92Glu.,Ellis MJ, Dodd FE, Sawers G, Eady RR, Hasnain SS J Mol Biol. 2003 Apr 25;328(2):429-38. PMID:12691751^[1]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Ellis MJ, Dodd FE, Sawers G, Eady RR, Hasnain SS. Atomic resolution structures of native copper nitrite reductase from Alcaligenes xylosoxidans and the active site mutant Asp92Glu. J Mol Biol. 2003 Apr 25;328(2):429-38. PMID:12691751

Proteopedia Page Contributors and Editors (what is this?)

OCA

[1] Ellis MJ, Dodd FE, Sawers G, Eady RR, Hasnain SS. Atomic resolution structures of native copper nitrite reductase from Alcaligenes xylosoxidans and the active site mutant Asp92Glu. J Mol Biol. 2003 Apr 25;328(2):429-38. PMID:12691751

[1]

@@ Line 1: / Line 1: @@
 ==Atomic Resolution Structure of the Wildtype Native Nitrite Reductase from Alcaligenes xylosoxidans==
-<StructureSection load='1oe1' size='340' side='right' caption='[[1oe1]], [[Resolution|resolution]] 1.04&Aring;' scene=''>
+<StructureSection load='1oe1' size='340' side='right'caption='[[1oe1]], [[Resolution|resolution]] 1.04&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[1oe1]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Alcaligenes_xylosoxidans Alcaligenes xylosoxidans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1OE1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1OE1 FirstGlance]. <br>
+<table><tr><td colspan='2'>[[1oe1]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Achromobacter_xylosoxidans Achromobacter xylosoxidans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1OE1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1OE1 FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CU:COPPER+(II)+ION'>CU</scene>, <scene name='pdbligand=PG4:TETRAETHYLENE+GLYCOL'>PG4</scene></td></tr>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.04&#8491;</td></tr>
-<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=PCA:PYROGLUTAMIC+ACID'>PCA</scene></td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CU:COPPER+(II)+ION'>CU</scene>, <scene name='pdbligand=PCA:PYROGLUTAMIC+ACID'>PCA</scene>, <scene name='pdbligand=PG4:TETRAETHYLENE+GLYCOL'>PG4</scene></td></tr>
-<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[1bq5|1bq5]], [[1gs6|1gs6]], [[1gs7|1gs7]], [[1gs8|1gs8]], [[1hau|1hau]], [[1haw|1haw]], [[1ndt|1ndt]], [[1oe2|1oe2]]</td></tr>
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1oe1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1oe1 OCA], [https://pdbe.org/1oe1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1oe1 RCSB], [https://www.ebi.ac.uk/pdbsum/1oe1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1oe1 ProSAT]</span></td></tr>
-<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1oe1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1oe1 OCA], [http://pdbe.org/1oe1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1oe1 RCSB], [http://www.ebi.ac.uk/pdbsum/1oe1 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1oe1 ProSAT]</span></td></tr>
 </table>
+== Function ==
+[https://www.uniprot.org/uniprot/O68601_ALCXX O68601_ALCXX]
 == Evolutionary Conservation ==
 [[Image:Consurf_key_small.gif|200px|right]]
 Check<jmol>
    <jmolCheckbox>
-     <scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/oe/1oe1_consurf.spt"</scriptWhenChecked>
+     <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/oe/1oe1_consurf.spt"</scriptWhenChecked>
-     <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
+     <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.spt</scriptWhenUnchecked>
      <text>to colour the structure by Evolutionary Conservation</text>
    </jmolCheckbox>
@@ Line 28: / Line 29: @@
 </div>
 <div class="pdbe-citations 1oe1" style="background-color:#fffaf0;"></div>
+==See Also==
+*[[Nitrite reductase 3D structures|Nitrite reductase 3D structures]]
 == References ==
 <references/>
 __TOC__
 </StructureSection>
-[[Category: Alcaligenes xylosoxidans]]
+[[Category: Achromobacter xylosoxidans]]
-[[Category: Dodd, F E]]
+[[Category: Large Structures]]
-[[Category: Ellis, M J]]
+[[Category: Dodd FE]]
-[[Category: Hasnain, S S]]
+[[Category: Ellis MJ]]
-[[Category: Denitrification]]
+[[Category: Hasnain SS]]
-[[Category: Nitrite reductase]]
-[[Category: Reductase]]

1oe1: Difference between revisions

Latest revision as of 00:20, 21 November 2024

Atomic Resolution Structure of the Wildtype Native Nitrite Reductase from Alcaligenes xylosoxidans

Structural highlights

Function

Evolutionary Conservation

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Navigation menu

Page actions

Page actions

Personal tools

Navigation

Search

Tools